A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2022-12-12, 15:46 +07
based on data in:
/home/blacksheeperoot/Work/Dev/nadiatools_tutorial/results/STARsolo
General Statistics
Showing 1/1 rows and 8/8 columns.| Sample Name | % Aligned | M Aligned | Number of Reads | Estimated Number of Cells | Unique Reads in Cells Mapped to Gene | Mean Reads per Cell | Mean UMI per Cell | Mean Gene per Cell |
|---|---|---|---|---|---|---|---|---|
| HEK_3T3 | 67.0% | 103.2 | 154038732.0 | 2501.0 | 13779225.0 | 5509.0 | 2241.0 | 1323.0 |
STAR
STAR is an ultrafast universal RNA-seq aligner.DOI: 10.1093/bioinformatics/bts635.
Alignment Scores
STARsolo
STARsolo STARsolo: accurate, fast and versatile mapping/quantification of single-cell and single-nucleus RNA-seq data.DOI: 10.1101/2021.05.05.442755.
Sequencing Metrics
Sequencing metrics
| Sample Name | Number of Reads | Reads With Valid Barcodes | Sequencing Saturation | Q30 Bases in CB+UMI | Q30 Bases in RNA read |
|---|---|---|---|---|---|
| HEK_3T3 | 154038732.0 | 1.0 | 0.5 | 0.0 | 0.9 |
Mapping Metrics
Mapping metrics
| Sample Name | Reads Mapped to Genome: Unique+Multiple | Reads Mapped to Genome: Unique | Reads Mapped to Gene: Unique+Multiple Gene | Reads Mapped to Gene: Unique Gene |
|---|---|---|---|---|
| HEK_3T3 | 0.8 | 0.7 | 0.2 | 0.2 |
Cell Metrics
Cell metrics
| Sample Name | Estimated Number of Cells | Unique Reads in Cells Mapped to Gene | Fraction of Unique Reads in Cells | Mean Reads per Cell | Median Reads per Cell | UMIs in Cells | Mean UMI per Cell | Median UMI per Cell | Mean Gene per Cell | Median Gene per Cell | Total Gene Detected |
|---|---|---|---|---|---|---|---|---|---|---|---|
| HEK_3T3 | 2501.0 | 13779225.0 | 0.4 | 5509.0 | 3396.0 | 5605231.0 | 2241.0 | 1595.0 | 1323.0 | 1101.0 | 30843.0 |
Violin plot
Highest Expressed Genes
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).